Dear Amber users, I am studying the possibility of doing some kind of
electrophysiological measurements in an ion channel (protein in membrane,
explicit water and ions), using Amber, and I have been doing some initial
tests, just turning on the "efz" switch to turn on an electric field, but I
am not totally understanding the results. In particular, I find that the
membrane gets highly deformed after about 200 ns (with an E field of about
0.5V/50A, which I believe is a reasonable value). Also, I don't quite catch
the meaning of the "ELECTRIC_FIELD" energy in the out file, as it varies
much more than I would expect.
I couldn't find any documents or papers with people using the E field with
Amber, so I was wondering if someone has used it, and if anyone knows how
sure we are that it works fine. I just found a couple messages in the
reflector from where I concluded that the facility was not thoroughly
tested (but this was several years ago).
Any info on this would be really helpful. Thanks so much!
Ignacio
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Received on Fri Jan 06 2023 - 08:00:02 PST
